Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine–pyruvate aminotransferase, mitochondrial.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g4211 g4211.t16 TSS g4211.t16 218497 218497
chr_2 g4211 g4211.t16 isoform g4211.t16 218870 220126
chr_2 g4211 g4211.t16 exon g4211.t16.exon1 218870 218928
chr_2 g4211 g4211.t16 exon g4211.t16.exon2 218992 219368
chr_2 g4211 g4211.t16 cds g4211.t16.CDS1 219111 219368
chr_2 g4211 g4211.t16 exon g4211.t16.exon3 219432 219484
chr_2 g4211 g4211.t16 cds g4211.t16.CDS2 219432 219484
chr_2 g4211 g4211.t16 exon g4211.t16.exon4 219536 219940
chr_2 g4211 g4211.t16 cds g4211.t16.CDS3 219536 219940
chr_2 g4211 g4211.t16 exon g4211.t16.exon5 220015 220126
chr_2 g4211 g4211.t16 cds g4211.t16.CDS4 220015 220126
chr_2 g4211 g4211.t16 TTS g4211.t16 220171 220171

Sequences

>g4211.t16 Gene=g4211 Length=1006
ATATCTCTTTCAAACAAGAAATTCATTAACTTTTTGCGTCAGTGGACCTGGTCATGCCGC
TTTGGAATGTGCTTTAACAAATCTAATTGAAGAAAATGATGTTATTTTAATTGTTTGTTC
TGGTATCTGGGGAACACGGGCTGGTAATATAGCAAAGCGTTTGAACGCTAATGTGAAAAT
GCTTTATAAGCATGTAGGTGAACAAGTTTCACTTAAAGAAACACGCGAATGTTTCAGAAT
GTATAAGCCCAAAATTTTCTTCATGGTACATGGTGAATCTAGTACAGGAATGATACAAAA
TAATATCGAAGATTATGGGAATTTATGTCGAGAGTTTGATTGTCTTTTTATTGTCGATTG
CGTTATCACGCTTGGCTGCACACCACTCTTTGTCGATAAATGGAAGATTGATATAGCTTA
TACAGGCACACAGAAGGTCTTAAATGCACCACCCGGTATTTCTCCAATCACATTCAGTCA
ACGAGCATACGATAAAATTGTCATGAGAAAATCATTAGTGAAGAGTTATAATTACGATGC
GATTCTGCTTGGTGAATATTGGAATTGCTTTCCACTTCGTCCGCGAATTTACCACCATAC
AATCTGCTCTTCATTACTTTATGGCTTGCGAGAAGCAATTGCAATTTTTATTGAGAATGG
TGGATTAGAAGCATCATGGGAAAAGCATGGAAAGGTTACGAGAAAATTTCATTCTATACT
AGAAAAAAATGGTTTACAATTGTTCATTGAAAACGCAGAAAATAGATGTCCATCAGTGAC
ATCAATCAAAGTTCCAGATAATATTGATACTCATAAAATTATAAGTTATGCGATGAACAA
ATATAAAGTTGAAATTGGTAATGGTGTGGGAATGACATTGGGTAAAATTTTCAGAATCGG
TCTTATGGGAGTAAACTGCAAAGATGAGCTTGCAGAGCGAGTGGCAAATATTCTCATCGA
AGCCATAAGAGCAATTGAAAATGAAAAGGTTGTATCAAAGATTTAA

>g4211.t16 Gene=g4211 Length=275
MLYKHVGEQVSLKETRECFRMYKPKIFFMVHGESSTGMIQNNIEDYGNLCREFDCLFIVD
CVITLGCTPLFVDKWKIDIAYTGTQKVLNAPPGISPITFSQRAYDKIVMRKSLVKSYNYD
AILLGEYWNCFPLRPRIYHHTICSSLLYGLREAIAIFIENGGLEASWEKHGKVTRKFHSI
LEKNGLQLFIENAENRCPSVTSIKVPDNIDTHKIISYAMNKYKVEIGNGVGMTLGKIFRI
GLMGVNCKDELAERVANILIEAIRAIENEKVVSKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4211.t16 Gene3D G3DSA:3.40.640.10 - 3 156 6.8E-34
6 g4211.t16 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase 157 275 4.4E-26
2 g4211.t16 PANTHER PTHR21152 AMINOTRANSFERASE CLASS V 7 273 2.5E-72
3 g4211.t16 PANTHER PTHR21152:SF22 SERINE–PYRUVATE AMINOTRANSFERASE 7 273 2.5E-72
1 g4211.t16 Pfam PF00266 Aminotransferase class-V 22 251 9.0E-25
5 g4211.t16 ProSitePatterns PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 77 97 -
4 g4211.t16 SUPERFAMILY SSF53383 PLP-dependent transferases 7 264 8.0E-56

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003824 catalytic activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed